Jmol/Application

Pages in Proteopedia use the unsigned applet form of Jmol, which operates automatically within a web browser. No installation or setup is needed, other than to ensure that Java is installed. For some advanced projects, you may wish to use the Jmol application. Here are instructions:


 * Load your molecule. There are several ways to load a PDB file:
 * If you do not have a downloaded copy of the PDB file:
 * Enter the command "load =1d66" in the white window (without typing the quotation marks). The "=" tells Jmol to get the file from the Protein Data Bank. Substitute your PDB code for 1d66.
 * If you have downloaded the PDB file:
 * Drag the file and drop it into the black Jmol window.
 * Enter the command "load ?", and a file picking dialog will appear.
 * Open Jmol's File menu (above the black window), and Open or Open Recent.